RetrogeneDB ID: retro_ogar_1443

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873547.1:5235009..5236365(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: NAE1
• Ensembl ID: ENSOGAG00000014645
• Aliases: None
• Description: NEDD8 activating enzyme E1 subunit 1 [Source:HGNC Symbol;Acc:621]

Sequence

>retro_ogar_1443
CAAAACTGAGCTCAAGCTGCCGTGGAATTCTTACAAGAATGAAATAACGATGTCTCTGGAAGTTTTGTGGAAAAGAACCC
AGAAAACCTTCTAGACAATGATCCTTCATTTTTCTGTAGGTTTACCATTGTGGCTGCAACTCAGCTTCCAGAAAGTACGT
GCCTTCGTTTAGGAGATGTCCTATGGAATTCCCAAATCCCTCTTTTGATCTGCAGGACATATGGGTTAGTTGGTTATATG
AGGATCATAATAAGAGAACATCCAATAATAGAATCTCATCCAGATAATGCATTAGAGTATCTACGACTAGACAAGCCACT
TCCTGAACTGAGAGAACATTTTCAGTCATATGATGTGGATCATATGGAAAAAAAGGACCATAGCCGTATTCCATGGATTG
TGATCAGAGCTAAATATTTAGCACAGTGGTATAGTGAAACAAATGGACAGACACCTAAACGTATAAAGAAAAAGAGGACT
TTGGAGATTTGATTAGACAAGGAATTCTAAAGAATGAAAATGGGGCTTCAGAAGATGAAGAGAATTTTGAAGAAGCTATT
AAAAATGTGAATACAGCACTAAATACAACTCGGATCCCAAGCAGTATTGAAGATATACTTAATGATGATCGCTGCATAAA
TATCACCAAACAGACTCTGTCATTTTGGATTTTAGCTCGTGCCTTAAAGGAATTTGTGTCCAAGGAAGGTCAAGGAAATT
TGCCTGTTCGGGGCACAGTTCCTGATATGATTGCAGATTCAAGCAAATATATAAAACTTCAAAATGTTTGCCGTGAAAAA
GCAAAGAAAGATGCTGCTGCTGTGGGTAGTCATGTAGCCAGACTGCTGCAGCCCATTGGCAAGGCACCAGAGTCCATTTC
AGAGAAAGAATTAAAATTACTCTGCAGCAATGCTGCATTTCTTCGAGTGGTAAGATGTCGATCCTTAGCTGAAGAATATG
GTTTGGACACAGTTAACAAGGATGAAGTTATTTCCAGCATGGACAATCCAGATAATGAAACAGTGTTGTACTTAATGTTA
CGCGCTGTTGATAGATTTCATAAACAACACGGTAGATATCCAGGGGTATCTAACTGTCAAGTTGAAGAAGATATAGGAAA
GATAAAAGTCTTGTCTCACTGGCTTCCTTCAAGAATATGGTTTATCTGTAATGGTGAAAGATGATTATGTTCATGAATTT
TGCTGATATGGAGCTGCTGAGCCACATACCATTGCTGCATTCCTGGGAGGAGCTGCTGCTGAACAGGCTATCAAAATACT
CACCAAACAATTTGTAATTTTTAATAATACTTAGATTTATAGTGGCATGGCACAAACTTCTGCAACTTTCCAGTTG

Alignment

ORF - retro_ogar_1443 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.99 %
• Parental protein coverage: 84.64 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KNRAQAAMEFLQELNNDVSGSFVEESPENLLDNDPSFFCRFTIVVATQLPESTLLRLADVLWNSQIPLLI
          .N.AQAA.EFLQE.NNDVSGSFVE..PENLLDNDPSFFCRFTIV.ATQLPEST.LRL.DVLWNSQIPLLI
Retrocopy QN*AQAAVEFLQE*NNDVSGSFVEKNPENLLDNDPSFFCRFTIVAATQLPESTCLRLGDVLWNSQIPLLI

Parental  CRTYGLVGYMRIIIKEHPVIESHPDNALEDLRLDKPFPELREHFQSYDLDRMEKKDHSHTPWIVIIAKYL
          CRTYGLVGYMRIII.EHP.IESHPDNALE.LRLDKP.PELREHFQSYD.D.MEKKDHS..PWIVI.AKYL
Retrocopy CRTYGLVGYMRIIIREHPIIESHPDNALEYLRLDKPLPELREHFQSYDVDHMEKKDHSRIPWIVIRAKYL

Parental  AQWYSETNGRTPK-TYKEKEDFRDLIRQGILKNENGAPEDEENFEEAIKNVNTALNTTQIPSSIEDIFND
          AQWYSETNG.TPK.TYKEKEDF.DLIRQGILKNENGA.EDEENFEEAIKNVNTALNTT.IPSSIEDI.ND
Retrocopy AQWYSETNGQTPK<TYKEKEDFGDLIRQGILKNENGASEDEENFEEAIKNVNTALNTTRIPSSIEDILND

Parental  DRCINITKQTPSFWILARALKEFVSKEGQGYLPVRGTIPDMIADSSKYIKLQNVYREKAKKDVAAVGNHV
          DRCINITKQT.SFWILARALKEFVSKEGQG.LPVRGT.PDMIADSSKYIKLQNV.REKAKKD.AAVG.HV
Retrocopy DRCINITKQTLSFWILARALKEFVSKEGQGNLPVRGTVPDMIADSSKYIKLQNVCREKAKKDAAAVGSHV

Parental  SKLLQSIGKAPESISEKELKLLCSNSAFLRVVRCRSLAEEYGLNTVNKDEIISSMDNPDNEIVLYLMLRA
          ..LLQ.IGKAPESISEKELKLLCSN.AFLRVVRCRSLAEEYGL.TVNKDE.ISSMDNPDNE.VLYLMLRA
Retrocopy ARLLQPIGKAPESISEKELKLLCSNAAFLRVVRCRSLAEEYGLDTVNKDEVISSMDNPDNETVLYLMLRA

Parental  VDRFHKQHGRYPGISNYQVEEDIGKL-KSCLSGFLQEYGLSVMVKDDYIHEFCRYGAAEPHTIAAFLGGA
          VDRFHKQHGRYPG.SN.QVEEDIGK..KSCL.GFLQEYGLSVMVKDDY.HEFC.YGAAEPHTIAAFLGGA
Retrocopy VDRFHKQHGRYPGVSNCQVEEDIGKI>KSCLTGFLQEYGLSVMVKDDYVHEFC*YGAAEPHTIAAFLGGA

Parental  AAQEVIKIITKQFVIFNNTYIYSGMSQTSATFQL
          AA...IKI.TKQFVIFNNT.IYSGM.QTSATFQL
Retrocopy AAEQAIKILTKQFVIFNNT*IYSGMAQTSATFQL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1443 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000021954	1 retrocopy	retro_ecab_942,
Nomascus leucogenys	ENSNLEG00000004047	1 retrocopy	retro_nleu_395,
Otolemur garnettii	ENSOGAG00000014645	1 retrocopy	retro_ogar_1443 ,
Pongo abelii	ENSPPYG00000007428	2 retrocopies	retro_pabe_3596, retro_pabe_759,